DreEX0022780 @ danRer10
Exon Skipping
Gene
ENSDARG00000026165 | col11a1a
Description
collagen, type XI, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-070209-167]
Coordinates
chr24:28747266-28748756:-
Coord C1 exon
chr24:28748712-28748756
Coord A exon
chr24:28747464-28747517
Coord C2 exon
chr24:28747266-28747373
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTTCACACTTTACTTTTCAGGGT
3' ss Score
10.31
5' ss Seq
AGGGTAAAT
5' ss Score
5.83
Exon sequences
Seq C1 exon
GGTGCAGATGGTGTCCGTGGTCTAAAGGGAGGCAAAGGAGAGAAG
Seq A exon
GGTGAGGATGGATTCCCAGGTTTCAAGGGAGACATGGGTCTCAAAGGCGACAGG
Seq C2 exon
GGAGAGCTGGGACTGGCTGGACCCAGAGGAGAAGATGGTCCAGAGGGCCCGAAGGGTCGTGCAGGGCCTAACGGTGAATCTGGACCCCAGGGATCTGCCGGAGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026165_MULTIEX1-13/42=12-14
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(20.3=100),PF0139113=Collagen=FE(22.2=100)
A:
PF0139113=Collagen=PD(11.6=44.4),PF0139113=Collagen=FE(27.0=100)
C2:
PF0139113=Collagen=PD(9.0=16.7),PF0139113=Collagen=FE(57.4=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCCGTGGTCTAAAGGGAGG
R:
CTTTTCTCCGGCAGATCCCTG
Band lengths:
142-196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]